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Dev #124

Merged
merged 27 commits into from
Oct 31, 2019
Merged

Dev #124

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e472ef6
intermediate commit towards new pairwise API
davidsebfischer Aug 27, 2019
3439ecd
finished new pairwise interface
davidsebfischer Aug 28, 2019
0a5f25f
improved conintuous model interface
davidsebfischer Aug 28, 2019
e97389e
fixed error in plotting gene fits if data is sparse
davidsebfischer Aug 28, 2019
9c00905
added missing flatten to array in plot by gene
davidsebfischer Aug 28, 2019
1d445dc
supported interpolation x axis in plots
davidsebfischer Aug 29, 2019
01d446c
fixed constraints interface
davidsebfischer Aug 29, 2019
dbef0d3
improved handling of constraints in wald test with respect to continu…
davidsebfischer Aug 30, 2019
9f00b6d
Merge branch 'new_pairwise_api' into dev
davidsebfischer Aug 30, 2019
17e1a33
fixed bug in non lazy z test fold change computation
davidsebfischer Aug 30, 2019
d102989
incremented batchglm dependency
davidsebfischer Aug 30, 2019
cffc1cd
added size factor unit test
davidsebfischer Aug 30, 2019
3b403b5
fixed size factor parsing based on batchglm InputData input objects
davidsebfischer Aug 30, 2019
7538e1a
added size factors to continuuos unit test
davidsebfischer Aug 30, 2019
06f591a
improved handling of continuous models if constraints are given
davidsebfischer Sep 3, 2019
599bfe4
added checks for design matrix rank and df of continuous model and ad…
davidsebfischer Sep 3, 2019
9797135
added unconstrained fitting of continuous models with interactions
davidsebfischer Sep 3, 2019
03eb895
added support for constraints in continuous models with interactions
davidsebfischer Sep 3, 2019
cfdea00
incremented batchglm version requirement to 0.6.8
davidsebfischer Sep 4, 2019
9a6985d
added basic condition wise plotting
davidsebfischer Sep 4, 2019
12c6667
added missing interactive plotting back-on statement in plotting of c…
davidsebfischer Sep 4, 2019
9b3ea33
batchglm numpy backend support functional from diffxpy
davidsebfischer Oct 31, 2019
e3e7ef3
added backend choice in all diffxpy tests
davidsebfischer Oct 31, 2019
ffbd58d
corrected formula documentation of lrt()
davidsebfischer Oct 31, 2019
0aa7def
fixed formula documentation of wald()
davidsebfischer Oct 31, 2019
f60e68c
updated batchglm requirements
davidsebfischer Oct 31, 2019
df68981
Merge pull request #123 from theislab/tf2_compatibility
davidsebfischer Oct 31, 2019
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Empty file removed diffxpy/models/__init__.py
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2 changes: 0 additions & 2 deletions diffxpy/models/batch_bfgs/__init__.py
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50 changes: 0 additions & 50 deletions diffxpy/models/batch_bfgs/objectives.py
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231 changes: 0 additions & 231 deletions diffxpy/models/batch_bfgs/optim.py
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